Mass-spectrometry-based draft of the human proteome

By Mathias Wilhelm, J. Schlegl, Hannes Hahne, A. Gholami, M. Lieberenz, Mikhail M. Savitski, Emanuel Ziegler, Lars Butzmann, Siegfried Gessulat, H. Marx and 12 more. Nature, 2014

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Subfields: Molecular Biology, Spectroscopy

View Paper: https://www.semanticscholar.org/paper/d42b45b1a05fc24546d7cbc59cf9ed45a765b849

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Citations in the corpus

Tissue-based map of the human proteome (2015, methodology): “Indirectly, this also provides an estimate of the relative protein levels corresponding to each gene, because proteogenomics analyses have shown that the translation rate, in most cases, is constant for a specific transcript across different human cells and tissues at both a cellular level (21) and ”
Enrichr: a comprehensive gene set enrichment analysis web server 2016 update (2016, background): “We created gene set libraries from HumanCyc (15), a Nucleic Acids Research, 2016, Vol. 44, Web Server issue W91 metabolic pathway resource stored in BioPAX format (16); gene and small-molecule perturbations from the LINCS L1000 data set; NCI-Nature pathways (17); protein complexes from the NURSA pro”
The UniProtKB guide to the human proteome (2016, background): “Similarly, high-throughput mass spectrometry-based proteomic studies recently allowed the production of draft maps of the human proteome (2, 3) and conserved macromolecular complexes in metazoans (4).”
An Integrated Mechanistic Model of Pan-Cancer Driver Pathways Predicts Stochastic Proliferation and Death (2017, background): “were generated in NIH-3T3 cells, a murine fibroblast cell line; therefore, how do we know these mRNA and protein half-lives will apply to MCF10A human breast epithelial cells? First, observations point to consistent gene-specific mRNA-to-protein ratios across different human cell types (Wilhelm et a”
Human protein interaction networks across tissues and diseases (2015, methodology): “The proteomes of human tissues have also been profiled by 19 August 2015 immunohistochemistry (Pontén et al., 2009; Uhlén et al., 2015) and mass-spectrometry techniques (Kim et al., 2014; Wilhelm et al., 2014).”
The ProteomeXchange consortium in 2017: supporting the cultural change in proteomics public data deposition (2016, background): “There are other resources outside PX dedicated to the reanalysis of MS proteomics data, for instance GPMDB (7) and proteomics DB (8).”
Advances and Trends in Omics Technology Development (2022, methodology): “These include high-resolution MS methods such as LTQ TM Orbitrap TM (194), matrix-assisted laser desorption ionization-time of ﬂight-time of ﬂight (MALDI-TOF-TOF), and Fourier transform ion cyclotron resonance (FT-ICR) that measures the exact masses [i.e., the theoretical mass of speciﬁc isotopic…”
Version 4.0 of PaxDb: Protein abundance data, integrated across model organisms, tissues, and cell‐lines (2015, methodology): “They include GPMDB [12], MOPED [13], ProteomicsDB [14], MaxQB [15], and Human Proteome Map [16].”